Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene034836.t1 | XP_013467943.1 | 95.9 | 196 | 8 | 0 | 1 | 196 | 1 | 196 | 1.10E-92 | 349.4 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene034836.t1 | P0DI40 | 78.1 | 196 | 39 | 1 | 1 | 196 | 1 | 192 | 1.5e-77 | 290.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene034836.t1 | A0A072VV58 | 95.9 | 196 | 8 | 0 | 1 | 196 | 1 | 196 | 8.0e-93 | 349.4 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene034836 | MS.gene049677 | PPI |
| MS.gene034836 | MS.gene81804 | PPI |
| MS.gene05032 | MS.gene034836 | PPI |
| MS.gene034836 | MS.gene05033 | PPI |
| MS.gene034836 | MS.gene26200 | PPI |
| MS.gene034836 | MS.gene017305 | PPI |
| MS.gene008354 | MS.gene034836 | PPI |
| MS.gene061583 | MS.gene034836 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene034836.t1 | MTR_1g058540 | 95.918 | 196 | 8 | 0 | 1 | 196 | 1 | 196 | 2.61e-120 | 338 |
| MS.gene034836.t1 | MTR_1g058570 | 77.041 | 196 | 43 | 1 | 1 | 196 | 1 | 194 | 3.19e-93 | 270 |
| MS.gene034836.t1 | MTR_1g058560 | 80.102 | 196 | 38 | 1 | 1 | 196 | 1 | 195 | 1.15e-91 | 266 |
| MS.gene034836.t1 | MTR_2g086740 | 52.857 | 210 | 83 | 1 | 2 | 195 | 10 | 219 | 2.30e-59 | 185 |
| MS.gene034836.t1 | MTR_7g011090 | 45.263 | 190 | 100 | 1 | 7 | 196 | 1 | 186 | 3.33e-52 | 166 |
| MS.gene034836.t1 | MTR_4g081880 | 42.197 | 173 | 100 | 0 | 23 | 195 | 14 | 186 | 2.16e-47 | 154 |
| MS.gene034836.t1 | MTR_5g041900 | 40.722 | 194 | 102 | 2 | 4 | 196 | 5 | 186 | 1.46e-41 | 139 |
| MS.gene034836.t1 | MTR_2g086740 | 49.645 | 141 | 55 | 1 | 2 | 126 | 10 | 150 | 6.56e-34 | 118 |
| MS.gene034836.t1 | MTR_0004s0210 | 34.615 | 156 | 87 | 4 | 37 | 189 | 7 | 150 | 4.06e-18 | 77.8 |
| MS.gene034836.t1 | MTR_0097s0070 | 34.167 | 120 | 73 | 3 | 73 | 189 | 69 | 185 | 1.64e-12 | 63.9 |
| MS.gene034836.t1 | MTR_3g064310 | 27.564 | 156 | 96 | 3 | 42 | 193 | 49 | 191 | 4.83e-11 | 60.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene034836.t1 | AT2G36100 | 54.950 | 202 | 84 | 2 | 2 | 196 | 5 | 206 | 3.24e-68 | 207 |
| MS.gene034836.t1 | AT3G11550 | 60.500 | 200 | 74 | 1 | 2 | 196 | 5 | 204 | 2.73e-64 | 197 |
| MS.gene034836.t1 | AT2G27370 | 55.978 | 184 | 74 | 1 | 12 | 195 | 43 | 219 | 6.75e-64 | 197 |
| MS.gene034836.t1 | AT5G06200 | 58.586 | 198 | 77 | 2 | 2 | 195 | 5 | 201 | 1.03e-63 | 196 |
| MS.gene034836.t1 | AT5G15290 | 44.000 | 150 | 84 | 0 | 27 | 176 | 17 | 166 | 4.56e-44 | 145 |
| MS.gene034836.t1 | AT1G14160 | 40.000 | 165 | 99 | 0 | 32 | 196 | 45 | 209 | 8.32e-42 | 140 |
| MS.gene034836.t1 | AT1G03700 | 30.769 | 169 | 99 | 3 | 21 | 189 | 1 | 151 | 1.95e-17 | 76.3 |
| MS.gene034836.t1 | AT1G17200 | 26.984 | 189 | 125 | 5 | 9 | 193 | 2 | 181 | 2.36e-14 | 68.9 |
| MS.gene034836.t1 | AT4G03540 | 32.258 | 124 | 75 | 2 | 55 | 178 | 26 | 140 | 1.06e-13 | 66.2 |
| MS.gene034836.t1 | AT3G06390 | 27.820 | 133 | 91 | 2 | 38 | 165 | 37 | 169 | 5.71e-11 | 59.7 |
Find 42 sgRNAs with CRISPR-Local
Find 76 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTGCCATTTGCAACCAATT+TGG | 0.187527 | 1.4:-48578182 | MS.gene034836:CDS |
| GTTGGTTGTGATGTCTTCTT+TGG | 0.281389 | 1.4:-48578093 | MS.gene034836:CDS |
| GTGATGTCTTCTTTGGCTCT+TGG | 0.299534 | 1.4:-48578086 | MS.gene034836:CDS |
| TCTTAGAACAAAATCCATTA+TGG | 0.318159 | 1.4:+48579249 | None:intergenic |
| ATGATGGTTACTATGGAAAA+TGG | 0.329026 | 1.4:+48578840 | None:intergenic |
| TGATGTCTTCTTTGGCTCTT+GGG | 0.348436 | 1.4:-48578085 | MS.gene034836:CDS |
| AGCAGCTGCCATGGTTTACT+TGG | 0.359773 | 1.4:-48578234 | MS.gene034836:CDS |
| GGCATTTGTGGGTGGCTACC+TGG | 0.401958 | 1.4:-48578874 | MS.gene034836:CDS |
| AATGTCAACCACTATTGATA+TGG | 0.415102 | 1.4:-48579356 | MS.gene034836:CDS |
| AGGGCGAATGATGGTTACTA+TGG | 0.422728 | 1.4:+48578833 | None:intergenic |
| CATAACTAGCTTCAAATTGA+AGG | 0.426220 | 1.4:+48579146 | None:intergenic |
| ATTGGAGCCACTGCAAGGCC+TGG | 0.429435 | 1.4:-48579292 | MS.gene034836:CDS |
| ATGGCAATCAAGACTCAAAC+TGG | 0.433393 | 1.4:-48578205 | MS.gene034836:CDS |
| ATCTCCAAATTGGTTGCAAA+TGG | 0.439108 | 1.4:+48578178 | None:intergenic |
| TGTTATTGCAATGGCATTTG+TGG | 0.446696 | 1.4:-48578886 | MS.gene034836:CDS |
| GTTATTGCAATGGCATTTGT+GGG | 0.458726 | 1.4:-48578885 | MS.gene034836:CDS |
| TGATTCTGCCATATCAATAG+TGG | 0.478795 | 1.4:+48579348 | None:intergenic |
| ATCATTCGCCCTCATGCACC+TGG | 0.484461 | 1.4:-48578822 | MS.gene034836:CDS |
| TGGTTACTATGGAAAATGGT+AGG | 0.486275 | 1.4:+48578844 | None:intergenic |
| TGGTGCTTCAGCAGCTGCCA+TGG | 0.489524 | 1.4:-48578243 | MS.gene034836:CDS |
| TGAAGGAACTGAGTGAAGAA+AGG | 0.493692 | 1.4:+48579163 | None:intergenic |
| CCACTGCAAGGCCTGGAGGA+TGG | 0.524990 | 1.4:-48579285 | MS.gene034836:CDS |
| TGCAGCAAGAGAAGCTGCTA+TGG | 0.527344 | 1.4:+48579219 | None:intergenic |
| CCATCCTCCAGGCCTTGCAG+TGG | 0.532661 | 1.4:+48579285 | None:intergenic |
| ATGAGGAAAAGCCTTGGTCC+AGG | 0.542585 | 1.4:+48578804 | None:intergenic |
| CTTTAATTGGAGCCACTGCA+AGG | 0.554612 | 1.4:-48579297 | MS.gene034836:CDS |
| GGTTACTATGGAAAATGGTA+GGG | 0.561081 | 1.4:+48578845 | None:intergenic |
| AGCCTTGGTCCAGGTGCATG+AGG | 0.573726 | 1.4:+48578813 | None:intergenic |
| AGGTGCATGAGGGCGAATGA+TGG | 0.573876 | 1.4:+48578824 | None:intergenic |
| GCCCTCATGCACCTGGACCA+AGG | 0.587519 | 1.4:-48578815 | MS.gene034836:CDS |
| TGCTGAAGCACCACTAGCAG+TGG | 0.592321 | 1.4:+48578253 | None:intergenic |
| AATCTGATCACTAGTTGCCA+TGG | 0.596028 | 1.4:+48579189 | None:intergenic |
| ATTGCAATGGCATTTGTGGG+TGG | 0.596308 | 1.4:-48578882 | MS.gene034836:CDS |
| ATGACATTAGCCACTGCTAG+TGG | 0.602800 | 1.4:-48578263 | MS.gene034836:CDS |
| ATGGTTTACTTGGCACACAA+TGG | 0.608727 | 1.4:-48578224 | MS.gene034836:CDS |
| GCGATGATGAGGAAAAGCCT+TGG | 0.613791 | 1.4:+48578798 | None:intergenic |
| GCCTTGGTCCAGGTGCATGA+GGG | 0.623258 | 1.4:+48578814 | None:intergenic |
| GGAGCCACTGCAAGGCCTGG+AGG | 0.665040 | 1.4:-48579289 | MS.gene034836:CDS |
| TTACTGTGTCTGCGATGATG+AGG | 0.667059 | 1.4:+48578787 | None:intergenic |
| TCTTGCTGCAACTATCACCA+TGG | 0.694318 | 1.4:-48579206 | MS.gene034836:CDS |
| AAAATGGTAGGGATAAGACC+AGG | 0.708096 | 1.4:+48578856 | None:intergenic |
| ATTGTGTGCCAAGTAAACCA+TGG | 0.791669 | 1.4:+48578226 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAAAAATCAATAAAGCAA+TGG | + | chr1.4:48578834-48578853 | None:intergenic | 15.0% |
| !! | ACTCAAATTAAGAATTAATT+AGG | + | chr1.4:48578685-48578704 | None:intergenic | 15.0% |
| !! | TAAGAATTAATTAGGAAATT+AGG | + | chr1.4:48578677-48578696 | None:intergenic | 15.0% |
| !! | TCATGTAAAAAAAATTTGAA+GGG | + | chr1.4:48578728-48578747 | None:intergenic | 15.0% |
| !! | TTCATGTAAAAAAAATTTGA+AGG | + | chr1.4:48578729-48578748 | None:intergenic | 15.0% |
| !!! | AAATTATTTGTTTAAGTTAG+AGG | + | chr1.4:48578346-48578365 | None:intergenic | 15.0% |
| !!! | AGAAACTATTATTTTAAAAG+TGG | - | chr1.4:48579058-48579077 | MS.gene034836:intron | 15.0% |
| !! | AATGTTTATTGTAAATATGC+AGG | - | chr1.4:48578517-48578536 | MS.gene034836:intron | 20.0% |
| !! | ATGAACATATATATTCTAGT+AGG | - | chr1.4:48578744-48578763 | MS.gene034836:intron | 20.0% |
| !!! | GTTAAGTACTTTTAAAAAAC+TGG | - | chr1.4:48579029-48579048 | MS.gene034836:intron | 20.0% |
| ! | AATGAGGAAATGAACTATTA+AGG | - | chr1.4:48578944-48578963 | MS.gene034836:intron | 25.0% |
| ! | GGTCATTTGAAAATAAATAG+AGG | + | chr1.4:48578813-48578832 | None:intergenic | 25.0% |
| ! | TCTTAGAACAAAATCCATTA+TGG | + | chr1.4:48578185-48578204 | None:intergenic | 25.0% |
| !! | AATGAAAAAGCTGCTTTAAT+TGG | - | chr1.4:48578121-48578140 | MS.gene034836:CDS | 25.0% |
| !!! | ATGGATTTTGTTCTAAGATT+AGG | - | chr1.4:48578187-48578206 | MS.gene034836:CDS | 25.0% |
| ATGATGGTTACTATGGAAAA+TGG | + | chr1.4:48578594-48578613 | None:intergenic | 30.0% | |
| ATTACTCCTTGTGTTTCTTT+CGG | - | chr1.4:48578787-48578806 | MS.gene034836:intron | 30.0% | |
| GAAGATAAATTGCTACAATG+AGG | - | chr1.4:48578928-48578947 | MS.gene034836:intron | 30.0% | |
| TAATGTCATAAACACCTACA+CGG | + | chr1.4:48579157-48579176 | None:intergenic | 30.0% | |
| TGGACTAAATAAATACACCT+AGG | + | chr1.4:48578391-48578410 | None:intergenic | 30.0% | |
| ! | AATACACCTAGGTTTTACAA+TGG | + | chr1.4:48578380-48578399 | None:intergenic | 30.0% |
| ! | CATAACTAGCTTCAAATTGA+AGG | + | chr1.4:48578288-48578307 | None:intergenic | 30.0% |
| ! | GTGTAGTTCAAATTTTGTGT+TGG | + | chr1.4:48578411-48578430 | None:intergenic | 30.0% |
| !!! | CAGGTTTTTTGTTATTGCAA+TGG | - | chr1.4:48578536-48578555 | MS.gene034836:intron | 30.0% |
| !!! | TATTGCTGTGGTTGTTTTAA+TGG | - | chr1.4:48579314-48579333 | MS.gene034836:CDS | 30.0% |
| ATCTCCAAATTGGTTGCAAA+TGG | + | chr1.4:48579256-48579275 | None:intergenic | 35.0% | |
| GAGCACAAAAATCTCCAAAT+TGG | + | chr1.4:48579266-48579285 | None:intergenic | 35.0% | |
| GAGGTTTAAATGTGACATAC+TGG | + | chr1.4:48578327-48578346 | None:intergenic | 35.0% | |
| GGTTACTATGGAAAATGGTA+GGG | + | chr1.4:48578589-48578608 | None:intergenic | 35.0% | |
| GTTATTGCAATGGCATTTGT+GGG | - | chr1.4:48578546-48578565 | MS.gene034836:intron | 35.0% | |
| TGATTCTGCCATATCAATAG+TGG | + | chr1.4:48578086-48578105 | None:intergenic | 35.0% | |
| TGGTTACTATGGAAAATGGT+AGG | + | chr1.4:48578590-48578609 | None:intergenic | 35.0% | |
| TGTTATTGCAATGGCATTTG+TGG | - | chr1.4:48578545-48578564 | MS.gene034836:intron | 35.0% | |
| ! | AAACTCAAACTTTTCCGTGT+AGG | - | chr1.4:48579140-48579159 | MS.gene034836:CDS | 35.0% |
| ! | GAAAAAAGGCATAGCCATAA+TGG | - | chr1.4:48578168-48578187 | MS.gene034836:CDS | 35.0% |
| ! | GATTTTTGTGCTCAAACAAG+TGG | - | chr1.4:48579273-48579292 | MS.gene034836:CDS | 35.0% |
| !! | TGTGTCATGTTTTATTGCTG+TGG | - | chr1.4:48579302-48579321 | MS.gene034836:CDS | 35.0% |
| !!! | TGTGGTTGTTTTAATGGTGT+TGG | - | chr1.4:48579320-48579339 | MS.gene034836:CDS | 35.0% |
| AAAATGGTAGGGATAAGACC+AGG | + | chr1.4:48578578-48578597 | None:intergenic | 40.0% | |
| AATCTGATCACTAGTTGCCA+TGG | + | chr1.4:48578245-48578264 | None:intergenic | 40.0% | |
| ATGGCAATCAAGACTCAAAC+TGG | - | chr1.4:48579226-48579245 | MS.gene034836:CDS | 40.0% | |
| ATGGTTTACTTGGCACACAA+TGG | - | chr1.4:48579207-48579226 | MS.gene034836:CDS | 40.0% | |
| ATTGTGTGCCAAGTAAACCA+TGG | + | chr1.4:48579208-48579227 | None:intergenic | 40.0% | |
| GTTGGTTGTGATGTCTTCTT+TGG | - | chr1.4:48579338-48579357 | MS.gene034836:CDS | 40.0% | |
| TGAAGGAACTGAGTGAAGAA+AGG | + | chr1.4:48578271-48578290 | None:intergenic | 40.0% | |
| ! | ACACCTAGGTTTTACAATGG+AGG | + | chr1.4:48578377-48578396 | None:intergenic | 40.0% |
| ! | CACCTAGGTTTTACAATGGA+GGG | + | chr1.4:48578376-48578395 | None:intergenic | 40.0% |
| ! | CTTGCCATTTGCAACCAATT+TGG | - | chr1.4:48579249-48579268 | MS.gene034836:CDS | 40.0% |
| !! | TGATGTCTTCTTTGGCTCTT+GGG | - | chr1.4:48579346-48579365 | MS.gene034836:CDS | 40.0% |
| AGGGCGAATGATGGTTACTA+TGG | + | chr1.4:48578601-48578620 | None:intergenic | 45.0% | |
| ATGACATTAGCCACTGCTAG+TGG | - | chr1.4:48579168-48579187 | MS.gene034836:CDS | 45.0% | |
| ATTGCAATGGCATTTGTGGG+TGG | - | chr1.4:48578549-48578568 | MS.gene034836:intron | 45.0% | |
| CTCCCTCCATTGTAAAACCT+AGG | - | chr1.4:48578371-48578390 | MS.gene034836:intron | 45.0% | |
| CTTTAATTGGAGCCACTGCA+AGG | - | chr1.4:48578134-48578153 | MS.gene034836:CDS | 45.0% | |
| TAGAGGCCGAAAGAAACACA+AGG | + | chr1.4:48578796-48578815 | None:intergenic | 45.0% | |
| TCTTGCTGCAACTATCACCA+TGG | - | chr1.4:48578225-48578244 | MS.gene034836:CDS | 45.0% | |
| TTACTGTGTCTGCGATGATG+AGG | + | chr1.4:48578647-48578666 | None:intergenic | 45.0% | |
| !! | GTGATGTCTTCTTTGGCTCT+TGG | - | chr1.4:48579345-48579364 | MS.gene034836:CDS | 45.0% |
| !!! | ATGCCTTTTTTCCATCCTCC+AGG | + | chr1.4:48578160-48578179 | None:intergenic | 45.0% |
| AGCAGCTGCCATGGTTTACT+TGG | - | chr1.4:48579197-48579216 | MS.gene034836:CDS | 50.0% | |
| AGGCCTGGAGGATGGAAAAA+AGG | - | chr1.4:48578154-48578173 | MS.gene034836:CDS | 50.0% | |
| ATGAGGAAAAGCCTTGGTCC+AGG | + | chr1.4:48578630-48578649 | None:intergenic | 50.0% | |
| GCGATGATGAGGAAAAGCCT+TGG | + | chr1.4:48578636-48578655 | None:intergenic | 50.0% | |
| TGCAGCAAGAGAAGCTGCTA+TGG | + | chr1.4:48578215-48578234 | None:intergenic | 50.0% | |
| AGGTGCATGAGGGCGAATGA+TGG | + | chr1.4:48578610-48578629 | None:intergenic | 55.0% | |
| ATCATTCGCCCTCATGCACC+TGG | - | chr1.4:48578609-48578628 | MS.gene034836:intron | 55.0% | |
| ! | TGCTGAAGCACCACTAGCAG+TGG | + | chr1.4:48579181-48579200 | None:intergenic | 55.0% |
| AGCCTTGGTCCAGGTGCATG+AGG | + | chr1.4:48578621-48578640 | None:intergenic | 60.0% | |
| ATTGGAGCCACTGCAAGGCC+TGG | - | chr1.4:48578139-48578158 | MS.gene034836:CDS | 60.0% | |
| GCCTTGGTCCAGGTGCATGA+GGG | + | chr1.4:48578620-48578639 | None:intergenic | 60.0% | |
| GGCATTTGTGGGTGGCTACC+TGG | - | chr1.4:48578557-48578576 | MS.gene034836:intron | 60.0% | |
| TGGTGCTTCAGCAGCTGCCA+TGG | - | chr1.4:48579188-48579207 | MS.gene034836:CDS | 60.0% | |
| CCACTGCAAGGCCTGGAGGA+TGG | - | chr1.4:48578146-48578165 | MS.gene034836:CDS | 65.0% | |
| CCATCCTCCAGGCCTTGCAG+TGG | + | chr1.4:48578149-48578168 | None:intergenic | 65.0% | |
| GCCCTCATGCACCTGGACCA+AGG | - | chr1.4:48578616-48578635 | MS.gene034836:intron | 65.0% | |
| GGAGCCACTGCAAGGCCTGG+AGG | - | chr1.4:48578142-48578161 | MS.gene034836:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 48578076 | 48579377 | 48578076 | ID=MS.gene034836 |
| chr1.4 | mRNA | 48578076 | 48579377 | 48578076 | ID=MS.gene034836.t1;Parent=MS.gene034836 |
| chr1.4 | exon | 48579127 | 48579377 | 48579127 | ID=MS.gene034836.t1.exon1;Parent=MS.gene034836.t1 |
| chr1.4 | CDS | 48579127 | 48579377 | 48579127 | ID=cds.MS.gene034836.t1;Parent=MS.gene034836.t1 |
| chr1.4 | exon | 48578791 | 48578914 | 48578791 | ID=MS.gene034836.t1.exon2;Parent=MS.gene034836.t1 |
| chr1.4 | CDS | 48578791 | 48578914 | 48578791 | ID=cds.MS.gene034836.t1;Parent=MS.gene034836.t1 |
| chr1.4 | exon | 48578076 | 48578291 | 48578076 | ID=MS.gene034836.t1.exon3;Parent=MS.gene034836.t1 |
| chr1.4 | CDS | 48578076 | 48578291 | 48578076 | ID=cds.MS.gene034836.t1;Parent=MS.gene034836.t1 |
| Gene Sequence |
| Protein sequence |
